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(-) Description

Title :  CRYSTAL STRUCTURE OF NEISSERIAL SURFACE PROTEIN A (NSPA)
 
Authors :  L. Vandeputte-Rutten, M. P. Bos, J. Tommassen, P. Gros
Date :  24 Apr 03  (Deposition) - 22 Jul 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.55
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (3x)
Keywords :  Beta Barrel, Outer Membrane Protein, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Vandeputte-Rutten, M. P. Bos, J. Tommassen, P. Gros
Crystal Structure Of Neisserial Surface Protein A (Nspa), A Conserved Outer Membrane Protein With Vaccine Potential
J. Biol. Chem. V. 278 24825 2003
PubMed-ID: 12716881  |  Reference-DOI: 10.1074/JBC.M302803200

(-) Compounds

Molecule 1 - OUTER MEMBRANE PROTEIN NSPA
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: NSPA
    Organism Scientific: NEISSERIA MENINGITIDIS
    Organism Taxid: 487
    Synonym: NEISSERIAL SURFACE PROTEIN A, NSPA

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (3x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
1CXE5Ligand/IonPENTAETHYLENE GLYCOL MONODECYL ETHER
2ETA1Ligand/IonETHANOLAMINE
3SO41Ligand/IonSULFATE ION
Biological Unit 1 (3, 7)
No.NameCountTypeFull Name
1CXE5Ligand/IonPENTAETHYLENE GLYCOL MONODECYL ETHER
2ETA1Ligand/IonETHANOLAMINE
3SO41Ligand/IonSULFATE ION
Biological Unit 2 (3, 21)
No.NameCountTypeFull Name
1CXE15Ligand/IonPENTAETHYLENE GLYCOL MONODECYL ETHER
2ETA3Ligand/IonETHANOLAMINE
3SO43Ligand/IonSULFATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:14 , LYS A:25 , ARG A:48BINDING SITE FOR RESIDUE SO4 A 156
2AC2SOFTWAREASP A:11 , ARG A:30 , ALA A:149 , VAL A:151 , CXE A:200BINDING SITE FOR RESIDUE CXE A 157
3AC3SOFTWAREALA A:12 , ALA A:13 , ILE A:31 , TYR A:52 , LEU A:147 , SER A:148 , CXE A:157BINDING SITE FOR RESIDUE CXE A 200
4AC4SOFTWARETYR A:70 , LEU A:82 , LEU A:108BINDING SITE FOR RESIDUE CXE A 300
5AC5SOFTWARETYR A:35 , ALA A:66 , ILE A:106BINDING SITE FOR RESIDUE CXE A 400
6AC6SOFTWARESER A:19 , GLY A:22 , SER A:23 , SER A:100 , SER A:102 , ASN A:137BINDING SITE FOR RESIDUE CXE A 500
7AC7SOFTWAREARG A:30 , ARG A:41 , ILE A:69 , TYR A:81 , ASP A:125 , ARG A:152BINDING SITE FOR RESIDUE ETA A 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1P4T)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1P4T)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1P4T)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1P4T)

(-) Exons   (0, 0)

(no "Exon" information available for 1P4T)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:155
 aligned with Q9RP17_NEIME | Q9RP17 from UniProtKB/TrEMBL  Length:174

    Alignment length:155
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169     
         Q9RP17_NEIME    20 EGASGFYVQADAAHAKASSSLGSAKGFSPRISAGYRINDLRFAVDYTRYKNYKAPSTDFKLYSIGASAIYDFDTQSPVKPYLGARLSLNRASVDLGGSDSFSQTSIGLGVLTGVSYAVTPNVDLDAGYRYNYIGKVNTVKNVRSGELSAGVRVKF 174
               SCOP domains d1p4ta_ A: Outer membrane protein NspA                                                                                                                      SCOP domains
               CATH domains 1p4tA00 A:1-155  [code=2.40.160.20, no name defined]                                                                                                        CATH domains
               Pfam domains --------------------------------Opacity-1p4tA01 A:33-155                                                                                                    Pfam domains
         Sec.struct. author ...eeeeeeeeeeeeeee....eeeee..eeeeeeee..eeeeeeeeeeee........eeeeeeeeeeee......eeeeeeeeeeeeeeeeee..eeee...eeeeeeeeeeeeeee..eeeeeeeeeeeeeee..eeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1p4t A   1 EGASGFYVQADAAHAKASSSLGSAKGFSPRISAGYRINDLRFAVDYTRYKNYKAPSTDFKLYSIGASAIYDFDTQSPVKPYLGARLSLNRASVDLGGSDSFSQTSIGLGVLTGVSYAVTPNVDLDAGYRYNYIGKVNTVKNVRSGELSAGVRVKF 155
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric Unit
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: MBB (97)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q9RP17_NEIME | Q9RP17)
molecular function
    GO:0015288    porin activity    Catalysis of the transfer of substances, sized less than 1000 Da, from one side of the membrane to the other. The transmembrane portions of porins consist exclusively of beta-strands which form a beta-barrel. They are found in the outer membranes of Gram-negative bacteria, mitochondria, plastids and possibly acid-fast Gram-positive bacteria.
biological process
    GO:0055085    transmembrane transport    The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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